Basic Information
VIS ID
TVIS30000585
Fusion event
HIV-PHKG2 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr16
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
30766054/30754733 (Hg38)
End
30766054/30754733 (Hg38)
Orient
+
Location type
Intronic
Target gene
PHKG2
miRNAs that regulate target gene
hsa-mir-615-3p ; hsa-mir-138-5p ; hsa-mir-127-5p ; hsa-mir-4668-5p ; hsa-mir-3613-3p ; hsa-mir-4311 ; hsa-mir-1276 ; hsa-mir-6821-5p ; hsa-mir-4284 ; hsa-mir-7162-3p ; hsa-mir-4649-3p ; hsa-mir-342-3p ; hsa-mir-1228-3p ; hsa-mir-3200-5p ; hsa-mir-632 ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-6716-5p ; hsa-mir-4646-5p ; hsa-mir-204-3p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p
Nearest miRNA
hsa-mir-1225/Upstream/250732; hsa-mir-11401/Downstream/120533;
Nearest TSS
ENST00000527434/Upstream/1501; ENST00000563909/Downstream/4991;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/5734, chr16-CpG: 135/Downstream/6476
Upstream sequence
cttaaccTGTGGACCCACATGTCTGGTGGATGTTGTACTTTAAAACCCTTTGGCTTCCACATGTACTTTTCCCGTTTGTGGAATCATCTTTGCCTCTGCC
Downstream sequence
CACTGCATCCTCTCCTTGGCTTGGGTAATTCAGGCTTCActttaaacctccagggcagcttaggtccccttgctttctgttctcccatcttcttcattca
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
Curate